MmuINT1020843 @ mm10
Intron Retention
Gene
ENSMUSG00000084844 | Hoxb3os
Description
homeobox B3 and homeobox B2, opposite strand [Source:MGI Symbol;Acc:MGI:103211]
Coordinates
chr11:96348289-96354691:-
Coord C1 exon
chr11:96353060-96354691
Coord A exon
chr11:96348389-96353059
Coord C2 exon
chr11:96348289-96348388
Length
4671 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
TTCCTTTGTTTTCATTTTAGACC
3' ss Score
10.01
Exon sequences
Seq C1 exon
AGTTGCTTCTCCTGCGCTCCAAGTCGCCCGGCCCAGCGCCATTTTGAGCATCGTTCCTATTTCCCGCGCTCTCTGCCGCTCGCCGTGCTACTTCTGTGAGCCAAAAGCCTCTTGCCACGCCCGGGCCTCCCTTCTTCCCTACAAAATTCCTAAGCCCCATTCTAGTCCTCAAGGACCTGGAGCCCCAAGGCAGCATCGGGCGCACAGCGCAGGCCTCGGCCTAAGCTTGCAGACTCAAAGCCCGCAGGCTAGCAAACCCAAGGATTTCTCCTTCAACTCTTTTAACCCTCTGCGCAGCCTCCAAGGCTCAAAGCTGGCCTCTGAGACATTTTCTTGTACCCGCTTCTGCACCCCCCCCCCCAGAACGCTGTTTTTCCACCCACCCCACATTTATTTCCAAGCAGGGACCCAGGGAACATCTTAGCAGGACTGGAAACGGTCTGTTTGCAGATGAACCAAGCTTCCATAAACTCTTCCTGGTGTCTTGGACAAAGAAATAGTCACCAAGCAGGGCCCCTTTTGTACCACCCGGACTTTGTCAGCCTGGGAGATGGGACCATGCCTTCCCTTGGGTCGCTTGAGCCAGAGCTAAACCAACTTCAAGCGGAGAGTGGGAAAGCAAAGACTGGCCGTAGGGACTTGGCAAAAAGAGCTAGATCCCAACACAAACACTCGTTTTCATATTATAAAGACATTTATTTACGCTATGAAAATAATGTACAATAAATACTTTCCCCCTTTCCTATTATTAAACAATTTTAATAAATAATCTACAATCTAAAACTTAAAAAAGAGGAAAATAGGTCCCTCTAGTTCTTTGTAAGAAAACCCTCTCCCACTAGAGTTTAATTATTCCTGAGATTTCGTTGGAAGGAGTTTTACCAAGTGGAATTTTTTGTGTGTGGTTTTAAAAAGCGAAAAGGAGTGAATGAAACGCTAATTCGTTACTATCTGGATTTTAACAAAACGGCATAAATGTATCCACGAGTGGAGAAGGCCCGATTCCCCCCGCCCCCAACAGCCAAGGAGGACCAGACGGAAAGGACCAAAGATGGAAAACAGTTAGGGAAACTGCAAGTCGATGGCACAGAGCGTGCTGGTGAAGAAGTCCAGCTCTTCCTCGGAAAAGGGCACGGGGCTATCGAGAGAACCCTGCAGGCTGGGTGAAAGGCCTCCGGACATCTGGAGACAGGAGTCTGCAGCGAAGAAATTGAGGTCCGGTAGAAAAGGCGAATCCTGCCGCTCGGGGCAGGCGTCTTCGGGTAGGGGCTCGCTCTGCCGGCCTCCGGCTCTGAGCATTGTGCAGCCGGGGCTCGATGCGCCCACACTCTCCAGGGTGGTGGCAGGCAGCGCTGACGGCGGTGCGCCCCGGGGTCCCTGCGCGGCCTCGGCGGGGTGGAAGCAGGCTTCCCGCAGCCGGTGAGTCGCGACGTCGCCCGGGCTGACCGTGGGTTCCTCGGCTGGCTCTCCCGCGTCGTCCTGGGCGCTCGGCCCGCCTGGTTCTCCCTCGGGCGGCTCTCGATGCTGCGTCTGCCGCTTGTGTTTCATGCGTCGGTTCTGGAACCAGACTTTGACCTGCCTTTCGGTGAGGTCCAGCAAGGCAGCGATCTCGACGCGACGCGGCCGGCACAG
Seq A exon
GTACTTATTGAAGTGGAACTCCTTCTCCAGCTCCAGCAGTTGCGTGTTGGTGTAGGCCGTGCGCAGTCTGCGGGAGCCGCTGCCGCCGCATTCTGGCAATCCGGGGCCATCTGCGAGGGAAGCACCCCTATGTTATCAGAGAGGTCTCAACGCAGCCTCCGTTTAGCTGAGATCGGGAGCACCCCTTTGGCTTAAAAGACTCTCAGCAGTCCTACTCGGGCTCCCACCCCACCCCCACAGCGCTTCTTTCTGTGTCTTTGGGGTTTTTTTTAGTGCTCTTCCACGTAGGCAGACCCGGCCCGGGTCAAGTCGGTGCCTTCAGAGCCGCCCACGGGCCACGTAGGGGGCGGGGAGCAATTTCTCTTAGCTCCCAGGACCTCAGAGTCTCCCTCCCCCAAGTCCTCCCAATGGACCCCTCAATTCAGAACTTTCCAACTCAACCTGGGGAGAGAGGGATCATAGATTGTTCTTCACCCCTTTCCTTCCTAGCTTTTGAATTCCCTCTTCTTCCCTAGCTTTAGGAGAGCTAGAGGCATCGCATCTTTTCCAGGCTCCAGATTCAATCCCAGACACGCTTCATTCCTCTACACAGAAACCGGGGAAACCCTTCAATCGAATCATTTTTTTCTAAGCACATTTAAAAAAAAAAAAAAAAAAAAAGCATCCTCCCCACCCTCAATCAGCTTCCAAAATTTTCTGGGGGTGGGGAAGCTAACAGTGGCTAGGCCTGAACCCCAGCGGGATACTCTGCTTCCCTCGCCCCAGATCCGTCGACCTAGGGAACCCCACCAGGAGCCCCATCACCTCACATTCTCCCCTTCTCTTCCAACTGCCCCTCACCCCGCCCCTAATACGTTTACCCACCTGATGGTGATCCGACCTCGGAGGCCCGGACCGAGGAGGCGGCTGGAGAAGGGGATGCGGCGGATTGGCTGGGTTTCTTGGTGGATTTCTTCTCTTTCATCCAGGGGAACTCGGGGGCTGGGGGGGCAACGGGGAGTGGCGGCGGTGACCGCAGAGCAGGCCCATCTCCGGCTTGCTTTTGGCTCCCTGGTCTCTGAAGGGTGGAGGCGCCGAGCTGGAGGCTGGGGAAGGTTTGCTCCAGAGGAGGAGGAGGAGGAATTAATGTCGACTCCTTGATTGATGAAGTTTGAAATGTCTCCAAGACAGCGGGGAAGGAAGTCAGACACTCGGCGAGCGATGGCTGGCTGTTTATAAACCCAATCTCCCTCTCAAATTCAAAATTCATGGCTTTCAATGGTGGGGGAGGGGGCCTGCTGGGGGGGGCGTCAGGAGGGAGAATCAGAGGGACCCCCCTCTCCCGCCCCCCCCAGGTTTATGCAATGGAGCAATTTCGCGGGGGGGGGGAGATTTCGCTCTCTCTCTTTTTTTTTTAAATTTAGGCCTTTATAATTGTATATTGCTGATAAATACAAGCGTATGGGGACTCTCTCTATTAAACCCAGGACTCCGCCGAAATTGCAGGGAATTCATGGTCACGGGACCGGTCTCCGCCAATCGCTAGTCTAGGCCTAGTGGAAAACACAGGCATTATTTGCTTTAATTGATTCAAAAACTCCAGAGGACCACGACCTGGATACCATGAGGCTTCCTCCTCTACCCCTGTTCCTTCATCAGTACCCTACACTCTCCCTAATGGCTCTCTTTTCCCAGAAAAGCCAAAAGAACCTCTTCCTTCCCTTCAGAGACTGTGTGGTGGTGGCAAACAACCACATTTAAGGGAGAAATGGAGTGAGTTAATATGCTTTCTTTATGTGGCCCTCAGTAGCCTCTTACCCTACCACCACCTCAGCCCCCAAAAGAAAAGAAAAAAAAATCTCATTTAGGGGGAAGTGGGAGTAGAAAGAGGCTTCCATACCTTGGGGGAAATCAGAAAGGAGATGGATAAAGGACAGCACTAAACACCAGCAGCAGCGGCAGCCCACCCACCCTCAGAAAGCAGTAGTTCACACTTAAGAAATGCACAGAGCTGGCACGCAGCAGGGACATAGATTCCAGGAGCACTTTGGGACATGGGCCTACCTCCCTTGCTATGTGCCCTGGATTCTAGTCTCTGCTCAGAATTTACAAGCAGTTTCTTATGTCCACTTGCCTTCCTGTTGGGGTCATCTGTACTCACACTGTGACACCCCAACCCTGGCAATAGGAGGGTCTAAGAAGGTCTAAGGTGACAGATGTATTCACAGGCCCCCAGGTGTATCTGTGTCTCTATCCAGGGCACCAAAGTAGCCATCCACTTAACTTTCAAAGCTAAAGTCAGTGCACAGTCGCCCTCTGGACAAAGGGATTTCCCCCTCTGTATTTGCCTTTGGGCTACTTTTAAAATCCCTGGTAAGAAAACATTTCCTAAAGATGGTGGGGGAGAGGGGGCTGGGGATAATGACCACCACTGAGATTATATTCTGCTTTGGGCCTCCAGAGAGAAAAAAAAATGTAATGTATTCTATGGTGAGGCACCTATGATGGGCTCAATTTTAGAATATTGTGATTTACTAGAGGAAGGAGGCAAAAAACAACAAAAAAAAAAAAAAAAAAAAAAAAAACCAAAAACAAAAAAACCTCAGAGCCACAAGCAAATTGGTGGGAAACTAGGCCTCAAAGCTGAAAATGAAAAGTCGGCTGGGGGAAGATTTTTAAATAAGTGGGTCAGAGGGACCAAGAGGAGATGAGGCGATCAATCTTAGCCCCCTGACAGCTCCCTCCGATTGCATCAAAGAATTTGGCTCTTTGGGAAAGCAGAGGGAACAACCTAAATTGCATATCCCTTAAAAAGGCCTGAGGGAGGGGGGAGCCAAAGAGAAAGGTGATTCTGGGAGATCTAGGAAACAGATGGGAAATGGGGACAGAGGGAAGGCGCTAACTTGGGTGGAAAGTTTGCCCCGGAGAACTCCCACGGCTCTGGCCTCCCCTCCCCCTCCTCGCTCTCTGTCGCCTAGCCTAGAGGAGAAGGCTGCTTAGCAGAGAAATGGCAACTCAGCGGAGAGCTGGAACTAGAAACTTTCTGTCAGTGTAACGTCCGCGTGGGTGGTGGTGAGTATTTAAAGAAAGAAAGAAAAGAAAAAGGCAGAGAAGTTTGCCGGGAAGCGGGAGGGGGGGGGAAGGAGGGAAACCTGGAGGTGGTGGTTGCAAGGACAGAAAGAGGCAGGCTCTTGGGAAACTGCTCTTAACTAGGCCAGCGGCCAGAGAGGGTGTTGTGTACCTTAGCTAAAACAAAACAATGTATGCATATATTTTCCTGGATGGTGGTTAGCAGAGGAGAATCCAAATAGTAACTGTCTGGAAGGGAGTCCTGTACAGTAAGGCCTGGGAGAGGGCCTTCTCCCCGGCAGCATGGGCACTTCCACAAGTTTTGTAACAGGCACTCCAGCTGGCTGCAGCATCCAAGGATCTCCTAAGACAACCAGAGCCCAGACTGTCCTGTAGGAAATACAGCTCTCTAACCCTTGATGACAGATTTTATGGCCAGATTAGTGAACAGTAGAAAACTTGGGTGTTAAAGTGGGGATCCAAGAAAACCCTCCAACCCTCCCTCCCTTCCAGAGACATCCGTCCAGCCCTGTCTGCTACCTTACAGAGCAGATTTTTATCCATGTTTTTAAACAGCTTTAGACCTAGAATCTGGAAAACAGAAGGGTAGGTCCTATTTTTGTTTAGAGCCCTAGCTCCAAGCCACAATATATCAATATAGCTAGCTAAATTCTCTCTTATCTGGTTCCTCTTCAGCTAGATAAATAAGCAATCCACCCTTCCCCTCACAGTCAAACATGACCCTTCTCATAGTTATATCATTCAGAAATGGTATTCAGGGAAGAGGAAGAGAAAAGGAAAGACAGACCCTTGAGCGTTATTTGATCCCAATCAAACATTGCACGCTCCTCTGCCTTTAATTTATAGCCTGGCCCAATGCTAAATTGCTTGCTGCCCAGATGAGCCAAGTCCAGTTAAAAAAATTCTACTTGGTGGGGAGGGGGCGTATTATTCAGGTTGTTTTTTTATTGTTATTTATTGTTGCATAAAGACTGTAATTACTAACCTTGGACTGCCAGGATACAACATAAAAATGAAAATCAGCCCTCGCTTTAAGGCTGAGGGCCTGGAAAGATTCTTATATCCCCACCCCCCCCACCCCGTATCACCACTACCACCAAATATATGCTCCTAATTAAGCAATGCGGGTTCATCGCTTACAATTAGAATTATGTAACTCTTCAGCGGGCAGCCATCGCTTCTCTTTCAACGAATTAGCTCCATATTTCAGCCTCCCCTGTCTCCTCGCTCTTGCTCTTATCATCGGATACCGCTATGCGGTGGTGACATTTCATCTTTGACAGACCCTCTCCATCCTCGCTCCAATGTGATAAAACTTTTATGGAACCAGGACTAAGAAATGAAGTTTTCCCAAGCATCGTGGAAACAGAGCCTCACGTTAGCCTGGGGACCATTTTATTTAAGCTTGGTTTCTACAGCTTCCTCTCGCCCCCTTCTCTTCCTTGGCAGGAGAAATCTAACCAGTCCTCCTCTTCCTCTGCCCTGGGCTTCATTTAATGATTAGATTTCGCTTTAGTTTTAAGGCTTGACCTGAGAAGTCTAGGCCTCGGCTTGTTGTCCCCCCCCCCCAAGATTAATCATTTTCCTTTGTTTTCATTTTAG
Seq C2 exon
ACCCAATGATGGTTGGGCTTCGGGTCACGTGACAGCCTCATTGTAGCTCCGGAAGAGAACGTGAAGTTTAGGTTGCCTGGAAGAAGCAGTAATAAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000084844:ENSMUST00000147410:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types